← Back to search

1eo4

;ECORV BOUND TO MN2+ AND COGNATE DNA CONTAINING A 3'S SUBSTITION AT THE CLEAVAGE SITE ;

Method: X-RAY DIFFRACTION D_max: 76.2 Å Quality: GOOD

SAXS Profile

P(r) Distribution

▼

1. Structure Basics

entry_id	1eo4
deposition_date	2000-03-21
title	;ECORV BOUND TO MN2+ AND COGNATE DNA CONTAINING A 3'S SUBSTITION AT THE CLEAVAGE SITE ;
keywords	Protein-DNA complex, restriction endonuclease, DNA analog, hydrolase-DNA COMPLEX; hydrolase/DNA
method	X-RAY DIFFRACTION

▼

Download Data

SAXS curve (.dat) P(r) distribution (.pr.out) Structure (CIF)

▼

2. SAXS Parameters (CRYSOL)

rg_guinier	23.83 Å
rg_electron	23.32 Å
i0	64051500.00
molecular_weight	59911.0 kDa
excluded_volume	73572 Å³
envelope_volume	84621 Å³
shell_volume	29643 Å³
envelope_diameter	80.0 Å
shell_rg	30.91 Å
envelope_rg	23.55 Å
shape_rg	23.36 Å
total_rg	24.00 Å
total_atoms	4212
n_residues	492
n_harmonics	20
q_range	— – 0.5000 Å⁻¹
n_points	101
shell_type	directional
solvent_density	0.3340 e/Å³
contrast_shell	0.0300 e/Å³
crysol_version	4.1.3

▼

3. P(r) Analysis (GNOM)

dmax	76.2 Å
rg_real	23.73 Å
rg_real_error	0.41 Å
i0_real	6.4050e+07
i0_real_error	8.2130e+05
rg_reciprocal	23.75 Å
i0_reciprocal	64050000.0000
total_estimate	0.8907
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	29.8 Å
skewness	0.263
kurtosis	-0.331
angular_range	— – 0.3350 Å⁻¹
current_alpha	0.0000
highest_alpha	15340000.0000
n_real_points	65
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.871; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.998; Smooth: 0.964

▶

4. Crystallography & Experiment

▶

5. Entities & Polymer Info (5)

Entity 1 polymer

description	;DNA (5'-D(CPAPAPGPAP(TSP)PAPTPCPTP*T)-3') ;
formula_weight	3348.3 kDa
src_method	syn
entity_count	2

Polymer

type	polydeoxyribonucleotide
strand_id	C,D
atom_count	4512

CAAGATATCTT

Entity 2 polymer

description	TYPE II RESTRICTION ENZYME ECORV
formula_weight	28690.4 kDa
ec_number	3.1.21.4
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	A,B

MSLRSDLINALYDENQKYDVCGIISAEGKIYPLGSDTKVLSTIFELFSRPIINKIAEKHGYIVEEPKQQNHYPDFTLYKPSEPNKKIAIDIKTTYTNKENEKIKFTLGGYTSFIRNNTKNIVYPFDQYIAHWIIGYVYTRVATRKSSLKTYNINELNEIPKPYKGVKVFLQDKWVIAGDLAGSGNTTNIGSIHAHYKDFVEGKGIFDSEDEFLDYWRNYERTSQLRNDKYNNISEYRNWIYRGRK

Source

organism	Escherichia coli
ncbi_taxonomy_id	562
host_organism	Escherichia coli

Entity 3 non-polymer

description	MANGANESE (II) ION
formula_weight	54.9 kDa
src_method	syn
entity_count	5

Entity 4 non-polymer

description	ACETIC ACID
formula_weight	60.1 kDa
src_method	syn
entity_count	2

Entity 5 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	300

▶

6. Citations (1)

▶

length_a	47.700 Å
length_b	48.500 Å
length_c	63.700 Å
angle_alpha	96.70 °
angle_beta	109.60 °
angle_gamma	106.30 °
z_pdb	2

space_group	P 1
int_tables_number	1
crystal_system	—

resolution	1.900 Å
resolution_low	4.900 Å
r_factor	0.2160
r_work	0.2130
r_free	0.3050

fit	/app/data/saxs_computation/eo/1eo4/1eo4.fit
pddf	/app/data/pr_computation/eo/1eo4/1eo4.pr.out
profile	/app/data/saxs_computation/eo/1eo4/1eo4.dat

;ECORV BOUND TO MN2+ AND COGNATE DNA CONTAINING A 3'S SUBSTITION AT THE CLEAVAGE SITE ;

SAXS Profile

P(r) Distribution

1. Structure Basics

Download Data

2. SAXS Parameters (CRYSOL)

3. P(r) Analysis (GNOM)

4. Crystallography & Experiment

Unit Cell

Symmetry

Refinement

Diffraction

5. Entities & Polymer Info (5)

Entity 1 polymer

Polymer

Entity 2 polymer

Polymer

Source

Entity 3 non-polymer

Entity 4 non-polymer

Entity 5 water

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)